RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy9430
(255 letters)
>d1j3aa_ c.21.1.1 (A:) Ribosomal protein L13 {Archaeon Pyrococcus
horikoshii [TaxId: 53953]}
Length = 142
Score = 136 bits (343), Expect = 3e-41
Identities = 58/142 (40%), Positives = 80/142 (56%), Gaps = 2/142 (1%)
Query: 88 LIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPA 147
+I+ G +LGRLAS VAK +L G VV+V AE I+GN KY R NP
Sbjct: 3 IINADGLILGRLASRVAKMLLEGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNPR 62
Query: 148 RGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTALRTV 207
RGPF+ + I +T+RGM P K DRG KA +RLKVY GIP ++ +Q + A +
Sbjct: 63 RGPFYPKRSDEIVRRTIRGMLPWKTDRGRKAFRRLKVYVGIPKEFQDKQLETIVEAHVSR 122
Query: 208 CLKPGRSYCSVGRISHEVGWKY 229
+P Y +VG ++ +G K+
Sbjct: 123 LSRP--KYVTVGEVAKFLGGKF 142
Score = 72.3 bits (177), Expect = 1e-16
Identities = 35/91 (38%), Positives = 45/91 (49%)
Query: 10 LIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNVNPA 69
+I+ G +LGRLAS VAK +L G VV+V AE I+GN KY R NP
Sbjct: 3 IINADGLILGRLASRVAKMLLEGEEVVIVNAEKAVITGNREVIFSKYKQRTGLRTLTNPR 62
Query: 70 RGPFHYRAPARIFWKTPILIDGRGHLLGRLA 100
RGPF+ + I +T + GR A
Sbjct: 63 RGPFYPKRSDEIVRRTIRGMLPWKTDRGRKA 93
>d1vqoj1 c.21.1.1 (J:4-145) Ribosomal protein L13 {Archaeon
Haloarcula marismortui [TaxId: 2238]}
Length = 142
Score = 129 bits (325), Expect = 2e-38
Identities = 47/145 (32%), Positives = 74/145 (51%), Gaps = 9/145 (6%)
Query: 84 KTPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCN 143
+++D R ++GR+AS VA+ L+G V VV AE I+G + KY KR +
Sbjct: 4 DADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITGREEQIVEKY----EKRVD 59
Query: 144 VNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYARRQRLCVPTA 203
+ G F+ + P IF +T+RGM PHK RG +A + ++VY G P Y + T+
Sbjct: 60 IGNDNGYFYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLGNP--YDEDGEVLDGTS 117
Query: 204 LRTVCLKPGRSYCSVGRISHEVGWK 228
L + + ++G IS +G
Sbjct: 118 LDRL---SNIKFVTLGEISETLGAN 139
Score = 78.0 bits (192), Expect = 8e-19
Identities = 30/94 (31%), Positives = 46/94 (48%), Gaps = 4/94 (4%)
Query: 7 KPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRNKLKYLAFLNKRCNV 66
+++D R ++GR+AS VA+ L+G V VV AE I+G + KY KR ++
Sbjct: 5 ADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITGREEQIVEKY----EKRVDI 60
Query: 67 NPARGPFHYRAPARIFWKTPILIDGRGHLLGRLA 100
G F+ + P IF +T + GR A
Sbjct: 61 GNDNGYFYPKRPDGIFKRTIRGMLPHKKQRGREA 94
>d2j01n1 c.21.1.1 (N:1-139) Ribosomal protein L13 {Thermus
thermophilus [TaxId: 274]}
Length = 139
Score = 85.9 bits (212), Expect = 9e-22
Identities = 31/122 (25%), Positives = 47/122 (38%), Gaps = 13/122 (10%)
Query: 87 ILIDGRGHLLGRLASIVAKTILNGN------------RVVVVRAELLNISGNFFRNKLKY 134
+LID G LGRLA+ +A + + VVVV A+ + ++G K+
Sbjct: 14 VLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLEQKIYT 73
Query: 135 LAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYAR 194
P R+ V+GM P G + KRLKVY G +
Sbjct: 74 RYSGYPGGLKKIPLEKMLATHPERVLEHAVKGMLPKGP-LGRRLFKRLKVYAGPDHPHQA 132
Query: 195 RQ 196
++
Sbjct: 133 QR 134
Score = 56.6 bits (136), Expect = 6e-11
Identities = 19/94 (20%), Positives = 32/94 (34%), Gaps = 12/94 (12%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTILNGN------------RVVVVRAELLNISGNFFR 51
+ + +LID G LGRLA+ +A + + VVVV A+ + ++G
Sbjct: 9 VEPRWVLIDAEGKTLGRLATKIATLLRGKHRPDWTPNVAMGDFVVVVNADKIRVTGKKLE 68
Query: 52 NKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKT 85
K+ P R+
Sbjct: 69 QKIYTRYSGYPGGLKKIPLEKMLATHPERVLEHA 102
>d2gych1 c.21.1.1 (H:1-140) Ribosomal protein L13 {Escherichia coli
[TaxId: 562]}
Length = 140
Score = 85.4 bits (211), Expect = 1e-21
Identities = 29/125 (23%), Positives = 53/125 (42%), Gaps = 13/125 (10%)
Query: 84 KTPILIDGRGHLLGRLASIVAKTILNGN------------RVVVVRAELLNISGNFFRNK 131
+ ++D G LGRLA+ +A+ + + ++V+ A+ + ++GN +K
Sbjct: 13 RDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDK 72
Query: 132 LKYLAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPK 191
+ Y + R P R+ V+GM P G ++LKVY G
Sbjct: 73 VYYHHTGHIGGIKQATFEEMIARRPERVIEIAVKGMLPKGP-LGRAMFRKLKVYAGNEHN 131
Query: 192 YARRQ 196
+A +Q
Sbjct: 132 HAAQQ 136
Score = 56.6 bits (136), Expect = 7e-11
Identities = 18/94 (19%), Positives = 37/94 (39%), Gaps = 12/94 (12%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTILNGN------------RVVVVRAELLNISGNFFR 51
+ R ++D G LGRLA+ +A+ + + ++V+ A+ + ++GN
Sbjct: 11 VKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRT 70
Query: 52 NKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKT 85
+K+ Y + R P R+
Sbjct: 71 DKVYYHHTGHIGGIKQATFEEMIARRPERVIEIA 104
>d2zjrg1 c.21.1.1 (G:30-171) Ribosomal protein L13 {Deinococcus
radiodurans [TaxId: 1299]}
Length = 142
Score = 81.6 bits (201), Expect = 4e-20
Identities = 29/122 (23%), Positives = 50/122 (40%), Gaps = 13/122 (10%)
Query: 87 ILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFRNKLKY 134
+++D G LGRLA+++A I G+ VVV+ A + ++G +K+
Sbjct: 13 VVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLDDKVYT 72
Query: 135 LAFLNKRCNVNPARGPFHYRAPARIFWKTVRGMTPHKLDRGAKALKRLKVYEGIPPKYAR 194
+ + P R+ V GM P +G RLKVY G ++
Sbjct: 73 RYTGYQGGLKTETAREALSKHPERVIEHAVFGMLPKGR-QGRAMHTRLKVYAGETHPHSA 131
Query: 195 RQ 196
++
Sbjct: 132 QK 133
Score = 51.5 bits (123), Expect = 4e-09
Identities = 18/94 (19%), Positives = 35/94 (37%), Gaps = 12/94 (12%)
Query: 4 ISRKPILIDGRGHLLGRLASIVAKTIL------------NGNRVVVVRAELLNISGNFFR 51
+ +++D G LGRLA+++A I G+ VVV+ A + ++G
Sbjct: 8 DEQNWVVVDASGVPLGRLATLIASRIRGKHRPDFTPNMIQGDFVVVINAAQVALTGKKLD 67
Query: 52 NKLKYLAFLNKRCNVNPARGPFHYRAPARIFWKT 85
+K+ + + P R+
Sbjct: 68 DKVYTRYTGYQGGLKTETAREALSKHPERVIEHA 101
>d2hmfa1 c.73.1.3 (A:2-303) Aspartokinase {Methanococcus
jannaschii [TaxId: 2190]}
Length = 302
Score = 25.6 bits (55), Expect = 6.1
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 20 RLASIVAKTILNGNRVVVV 38
+A IV K + VVVV
Sbjct: 19 HVAKIVTKRKKEDDDVVVV 37
Score = 25.6 bits (55), Expect = 6.1
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 98 RLASIVAKTILNGNRVVVV 116
+A IV K + VVVV
Sbjct: 19 HVAKIVTKRKKEDDDVVVV 37
>d1ofla_ b.80.1.4 (A:) Chondroitinase B {Pedobacter heparinus
[TaxId: 984]}
Length = 481
Score = 25.6 bits (55), Expect = 6.4
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 9/51 (17%)
Query: 2 PGISRKPILIDGRGHLLGRLASIVAKTILNGNRVVVVRAELLNISGNFFRN 52
G S PI I K G+ V +R E L + G +F++
Sbjct: 39 SGKSGLPITIKALNP---------GKVFFTGDAKVELRGEHLILEGIWFKD 80
>d1vj7a2 d.218.1.8 (A:197-371) Stringent response-like protein RelA
domain 2 {Streptococcus equisimilis [TaxId: 119602]}
Length = 175
Score = 24.7 bits (53), Expect = 8.4
Identities = 6/23 (26%), Positives = 10/23 (43%), Gaps = 2/23 (8%)
Query: 229 YKTIVRHLERKR--REKSIEKIK 249
+ I + KR RE ++ I
Sbjct: 4 FYKISHMMNEKRREREALVDDIV 26
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.327 0.142 0.442
Gapped
Lambda K H
0.267 0.0556 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,004,841
Number of extensions: 48775
Number of successful extensions: 183
Number of sequences better than 10.0: 1
Number of HSP's gapped: 173
Number of HSP's successfully gapped: 20
Length of query: 255
Length of database: 2,407,596
Length adjustment: 83
Effective length of query: 172
Effective length of database: 1,268,006
Effective search space: 218097032
Effective search space used: 218097032
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.2 bits)